doc/manual/mussagl_manual.adp

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   6           <property name="title">Mussagl Manual</property>
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   9           <property name="aboutmenutext">About Mussagl Manual</property>
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  15                       title="Mussagl Manual">
  16
  17             <section ref="./mussagl_manual.html#contents" title="Contents" />
  18
  19             <section ref="./mussagl_manual.html#introduction" title="Introduction">
  20                 <section ref="./mussagl_manual.html#what-is-mussagl" title="What is Mussagl?">
  21                     <keyword ref="./chap1/section1.html#foo">foo</keyword>
  22                     <keyword ref="./chap1/section1.html#bla">bla</keyword>
  23                     <section ref="./mussagl_manual.html#mussa-python-pmw-prototype" title="Mussa Python/PMW Prototype"/>
  24                     <section ref="./mussagl_manual.html#mussa-c-fltk" title="Mussa C++/FLTK"/>
  25                     <section ref="./mussagl_manual.html#mussa-c-qt-opengl" title="Mussagl C++/Qt/OpenGL"/>
  26                 </section>
  27             </section>
  28
  29             <section ref="./mussagl_manual.html#getting-mussagl" title="Getting Mussagl">
  30                 <section ref="./mussagl_manual.html#license" title="License"/>
  31                 <section ref="./mussagl_manual.html#platforms" title="Platforms"/>
  32                 <section ref="./mussagl_manual.html#download" title="Download"/>
  33
  34                 <section ref="./mussagl_manual.html#install" title="Install">
  35                   <section ref="./mussagl_manual.html#mac-os-x" title="Mac OS X"/>
  36                   <section ref="./mussagl_manual.html#windows-xp" title="Windows XP"/>
  37                   <section ref="./mussagl_manual.html#linux" title="Linux"/>
  38                   <section ref="./mussagl_manual.html#build-from-source" title="Build from Source"/>
  39                 </section>
  40
  41             </section>
  42
  43             <section ref="./mussagl_manual.html#using-mussagl" title="Using Mussagl">
  44
  45                 <section ref="./mussagl_manual.html#launch-mussagl" title="Launch Mussagl"/>
  46
  47                 <section ref="./mussagl_manual.html#create-load-analysis" title="Create/Load Analysis">
  48                   <section ref="./mussagl_manual.html#create-a-new-analysis" title="Create a new analysis"/>
  49                   <section ref="./mussagl_manual.html#load-a-mussa-parameter-file" title="Load a mussa parameter file"/>
  50                   <section ref="./mussagl_manual.html#load-an-analysis" title="Load an analysis"/>
  51                 </section>
  52
  53                 <section ref="./mussagl_manual.html#main-window" title="Main Window">
  54                   <section ref="./mussagl_manual.html#overview" title="Overview"/>
  55                   <section ref="./mussagl_manual.html#dna-sequence-black-bars" title="DNA Sequence (black bars)"/>
  56                   <section ref="./mussagl_manual.html#annotation" title="Annotation"/>
  57                   <section ref="./mussagl_manual.html#motif" title="Motif"/>
  58                   <section ref="./mussagl_manual.html#conservation-tracks" title="Conservation Tracks"/>
  59                   <section ref="./mussagl_manual.html#motif-toggle" title="Motif Toggle"/>
  60                   <section ref="./mussagl_manual.html#zoom-factor" title="Zoom Factor"/>
  61                   <section ref="./mussagl_manual.html#dynamic-threshold" title="Dynamic Threshold"/>
  62                   <section ref="./mussagl_manual.html#sequence-information-bar" title="Sequence Information Bar"/>
  63                   <section ref="./mussagl_manual.html#sequence-scroll-bar" title="Sequence Scroll Bar"/>
  64                 </section>
  65
  66                 <section ref="./mussagl_manual.html#annotations-motifs" title="Annotations / Motifs">
  67                   <section ref="./mussagl_manual.html#annotations" title="Annotations"/>
  68                   <section ref="./mussagl_manual.html#motifs" title="Motifs">
  69                     <section ref="./mussagl_manual.html#load-motifs-from-file" title="Load motifs from File"/>
  70                     <section ref="./mussagl_manual.html#save-motifs-to-file" title="Save Motifs to File"/>
  71                     <section ref="./mussagl_manual.html#motif-dialog" title="Motif Dialog"/>
  72                   </section>
  73
  74                 </section>
  75
  76                 <section ref="./mussagl_manual.html#view-mussa-alignments" title="View Mussa Alignments"/>
  77                 <section ref="./mussagl_manual.html#saving-to-an-image" title="Saving to an Image"/>
  78
  79                 <section ref="./mussagl_manual.html#detailed-information" title="Detailed Information">
  80                   <section ref="./mussagl_manual.html#threshold" title="Threshold"/>
  81                   <section ref="./mussagl_manual.html#window-size" title="Window Size"/>
  82                   <section ref="./mussagl_manual.html#sequences" title="Sequences"/>
  83                 </section>
  84
  85                 <section ref="./mussagl_manual.html#mussa-file-formats" title="Mussa File Formats">
  86                   <section ref="./mussagl_manual.html#parameter-file-format" title="Parameter File Format"/>
  87                   <section ref="./mussagl_manual.html#annotation-file-format" title="Annotation File Format"/>
  88                   <section ref="./mussagl_manual.html#motif-file-format" title="Motif File Format"/>
  89                   <section ref="./mussagl_manual.html#iupac-necleotide-code" title="IUPAC Nucleotide Code"/>
  90                 </section>
  91
  92             </section>
  93
  94
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